lowQualScore : 22222222222222222222222222222222222222222 11111111111111111111111111111111
lowQualScore : 111111111111 777777777777777777777 4444444444444 5555555555555555555555555555555555555555 22 111111 1 1 11 00000000000000000000000000000000000000000 22 1 333333333333333 33 111111 666666666666666 44 11111 44444444444444444444444444444444 3 4 1 55555
lowQualScore : 3 555555555555 3 000000000000000000000 44 33 44 6666 3333333333333 3 3 5555 555 666 1111111111111111111111111111111111111111 4 1 22 77 5 2 5 99 999999 9 7 7 11 99 22222222222222222222222222222222222222222 77 1 111111111111111 5 11 5 777777 1 444444444444444 8 99 88888 44444444444444444444444444444444 0 2 0 0 22222 6
lowQualScore : . ............ . ..................... .. .. .. .... ............. . . .... ... ... ........................................ . . .. .. . . . .. ...... . . . .. .. ......................................... .. . ............... . .. . ...... . ............... . .. ..... ................................ . . . . ..... .
lowQualScore : 1 888888888888 1 777777777777777777777 22 66 22 2222 5555555555555 1 1 5555 555 444 0000000000000000000000000000000000000000 0 5 99 99 0 7 0 22 222222 8 0 0 22 88 00000000000000000000000000000000000000000 88 4 888888888888888 7 00 7 333333 7 777777777777777 0 00 55555 55555555555555555555555555555555 0 5 0 0 88888 0
consensus : CTTGAGG-ACAGGAA------------AC-AGCACCCC-----AC-TAC-----CCC--CCCCCT-C--C---CGAATGTT--AN--C----C-C-C-A--GGC-T-TCTTGTG---A-CTT-----TT---CG-TGTCAA--T-C-----A------TTT-ATGACATATT--TCTGATCCATCCTAT-GC------CATAACTCCGAAAATTAAAC-TTAAANAATCA------------TTTTTAAA-------A------A---CCTAACCCGACTAGTAT-AA-CANAG--A---AA-GGTTGCCAAC-TTCGTCT-GCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGAAATGTAT--------T--TAAAATCTACACCTACC-AGTAAA--ATCAACG-A---TCTCCA--C----GC--GC---------CAGCCC--GAATATTTCCGCCGCTGAACATACGCAT-GT-CACGTAAATTAAATAAA
Reference ( gi|1 ) : CTTGAGG-ACAGGAA------------AC-AGCCCCCC----TACATAC-----CCC--CCCCCT-C--C---CGAATG-T--AT--T----C-C-C-A--GGC-T-TCTTGTG---ATTTT-----TT---CA-TGTCAA--T-C-----A------TTT-ATAACATATT--TCTGGTTCATCCTA--GC------CATAACTCAGAATATTTAAC-TTAAAGAATCGTTTTTTTTTTTTTTTTTAAA-------A------A---CCTAATACGACTAGTAT-AA-TATAG--A---A--GGTTGCCAAC-TTCGTCTTGCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGAAAT-TA---------T--TAAAATCTACACCTACC-AGTAAATCATCAACG-A---TCTCCA--C----A---GT---------CAG-CT--G-ATATTT-CGCCGCTGAACATATCCATCGT-CACGTA---TAAATGAA
gi|15 : CTTGAGG-ACA-GAA------------AC-AGCACCCC----TTC-TACA----CCC--CCCCAC-C--C---CAAAAG-TTAAC--C----C-CGC-G--GGC-T-TCTTGGG---A-CTT-----TT---CG-TGTCAA--T-CACTTTA------TTT-ATGACA
gi|13 : CTTGAGG-ACAGGAA------------AC-AGCACC----------TAC-----TCC--CACCA--C--G---AGAATA-TTAAA--T----C-C-C-G--AGC-C-TCTTGTG---ACTTT-----CT----G-GGTCAA--C-C-----A------CT
gi|18 : agagCTTGAGG-ACAGGAAGACACCACACCTAC-ACCCCCCCCCCCTACCCAC-----ACC--CCCCCC-C--C---CAAGT--T--AC--C----C-C-C-G--GGC-T-TCctttttaattaccggacgaaagtttctgacgcgtcc
gi|14 : ggtgCTTGAGG-ACAGGA------------------CCC-------------C-----CCC--CCCCCT-C--CGGGAGAGTG----AG--A----C-C-C-ATGGGC-C-TTTTTAG---ACTTT-----TT-----------------------------TTTAATAA--------TCTAATCTATCCTAT-GC------AATAAATCTGAAAATT
gi|21 : gtgCTTGAGG-ACAGGAA------------AC-AACACTTA-----ACCCAC-----CGC--GCCACT-C--T---AGAATGTT--AA--C----C-C-C----GGC-TCTCTTG
gi|7 : atgTTGAGG-ACAGGAA------------AC-AGCACC------------C-----CCC--CCTCCC-C--C---CGAATA-TTAAC--C----C-C-C-A--GGC-T-TCTTGTG---A-CTT-----TT---CG-TGTCAA--T-A-----ACTTC--CTT-ATGACATATT--TCTGATCCATCCTAT-GC------CATAACCCCCCAAATTAAAC-TTAAACAATCA------------TTTTTAAA-------AAAACCCA---CCTAACCCGACTAGTATAAA-CATAG--AC--A--GGTTGTCAAC-TTCGTC-TGCA-AGGCGAGA-G----GCATTCCCTAAGGTATTTa
gi|8 : TTGAGG-ACAAGAA------------AC-AGC--------------AC-----CCA--CCCACC-T--C---CGAATGCT--AT--C----C-C-CCA--GGC-T-TATTGCG---ATTTT-----T----CG-TGTCAA--T--------------------AA-ATATT--AC------AT------GC------TATAACTCCGAAAATTAAAC-TTAGAGAAT--------------TTTTTAAA------------------TCTAACCCGACTAGTAT-AAACAAAG--A---AA-GGTTGCTAAC-TTCGTCT-GCACAGGCGAGA-G----GCAATCTCCAATGTATTTCGTTGAAATGTAT--------T--TAAAATCTACACCTACC-AG
gi|12 : TGAGGGACAGGAA------------ACGAGCCGCCC----TACATACACCATCCC--CCCCCT-CCAC---TGAATGTT--ATCCC----C-C-C-A--GACGT-TCTTGTGAGAATCTCAACGGTC---TA-AGTCAACCT-C-----C------TTT-ATAGCAT-TT--CCTGG
gi|5 : ggtgctgGAGG-ACAGGAA------------AC-AGCACCC----------AT-----CCC--CCACAC-C--C---CGA-CA-T--AT--TATCCC-C-C-A--GGC-T-TCTTGTG---ACTTT-----CTTGTCA-TGCC----T-C-----T------TTA-ATGACA-ATT--TCTGATCCATCCTATTGC------TATAACTCCGAAAATCAAAT-ATAAAAAA--------------------AAA-------A------AAACCCTAA--CG-CTAGTAT-AA-AAGAG--A---AAAGGTTGCAAGC-TTCGTCT-GCA-AGGCGAGAGG----GCAAT-CCCAGGGTATTTCGTTGAACTGTA---------TTGTAAAATCTACACCTAatgca
gi|10 : ctgtgGAGG-ACAGGAA------------AC-AGGTGCCC----CAC-TAC-----CCCCACCCCCTCC--C---CGAATGTT--AT--G----CAC-C-A--GGC-T-TC-TGTG---A--CT-----TT---CAGTGTCAA--T-C-----ACTC---TTT-AGGACATATTTCTCTGGTTC-TCCTAT-GCCCCAAACACAACTCAttt
gi|9 : GG-ACAGGAA------------AC-AGCACTTC----TAC--CC-----CCC--CCCCCT-C--C----------------------C-C-C-A--GGC---TCTTGTG---A-CTT-----TT---CG-TGTCCA--TCC-----ACTTTTCTTT-ATGACATATT--TC-GATCCATCCTT--GC------CATAATTCGCAAAACTAAACACTAA--AATCA-------------TTTTAAAAGAAAAGA------A---GCTAACCCGACTAGTAT-AA-cacttcagcacacatc
gi|20 : GG-ACAGGAA------------AC-AGCACC--------CATG--------C--CTCCAT-C--C---CAAATGTT--AA--C----C-C-C-A--GGA-C-TATTGTG---A-CTT-----TT---GG-TGT--A--T-C-----C------TTT-ATGACAa
gi|19 : GG-ACAGGAA------------AC-AGCACC--------CATG--------C--CTCCAT-C--C---CAAATGTT--AA--C----C-C-C-A--GGA-C-TATTGTG---A-CTT-----TT---GG-TGT--A--T-C-----C------TTT-ATGACA
gi|2 : TCTTTTTTTTTCCAAA-------A------A---CCTACCCCGACTAGTACGAA-GAGAG--A---AA-GGTTGCCAAC-TTCGTCT-ACA-AGGCGAAA-ATTAAGCAATTCCCAGGGTATTTCGTTGAAATGTAT--------T--TACAATATACACCGACT-AGTAAA--ATCAACG-A---TCTCCATGC----ACGCGT----------AGCCT--GAATATTTCCGCCGCTGAACATACCCAT-GT-TACGTAAATTAAA
gi|3 : caaaataaaaaaaaaaCAACTAGTAT-AA--ACAG--AGAAA--GGTTGCTAAC-TTTGTCT-GCA-GGGCGAGG-G----GCAGTTCCTTGGGTATTTCGTTGAAAT-CATTAATGTAGT--TAAAATCTAAAACTACC-AGTAAAT--TCAATGTAAATTCTCCA--T----G---GCGATGATGCGTAG-CCCGA-ATGTTTCCGCCGCTGAACATACCCAT-GT-CACGTAAATTAAActccattctaagtgtaaaacgaaattattttcgtcggtatataatcacttttagaactcgtccaacttcgatcaacggaagaagaaaa
gi|4 : cTGGTAT-AAACATAAGAA---A--GGTTGCCAACATTCGTC-TACA-AGGCGATA-G----GCAATCCCCAAGGTATTTCGTTAAAATGTA---------T--TTAAATCTACATCTACCAAGTAAA--ATCAACG-A---TCTCCA--CGCGTA---GC---------C---CT--GAATATTT-CGCCGCTGAACATATGCAT-GTCCACG-----TAAATAAAgtccattctcattgaaacgaaataatttttgtcggtatatataatcactttttttaactcatccaatctcgatcaacggaagtagaaaa
gi|6 : tg--A---A--GGTTGCCAAC-TTCATCT-GCA-AGGCGAGA-------CAATCCCCAGGGTATTTCGTTGAAATGTAT--------T--TAAAATCTACACCTACC-AGTAAA--ATCAACG-A---TCTCCA--C----GC--GT----------AGCCT--GAATATTTCCGCCGCTGAACATATGCAT-GT-CACGTAAATTAAAgtccattctataacggtgaagacgaagtaattttcgtcggtataatagtcaactttttgaaactgtccaacttcgatcacggaagtgaaaaaaa
4 sequences could not be aligned to this particular reference sequence:
Unaligned ( gi|11 ): AGTCCATTCATATAGGTGAAACGAAATAATTTTCGTCGGTATATAATCACTTTTTGAACTCGTCCAACTTCGAATCAACGAAAGTAGTAAAATCACGACACCTACGACAAGAAGGGTAACTCTCATGGTATCCAGCAA
Unaligned ( gi|16 ): ACTTTTTGAACTCGTCCAACTTCAATCAACGGAAATAGAAAAATCACGACACCTATGACAAGAAGGATAACTCTCATGATATGCAGAAAGG
Unaligned ( gi|17 ): CGTCCCCAATTCAATCAACGGAAATTAGAAAAATCACGACACCGTAGTAGACAAGAAGGATAACTCTCATGATATGCAAGAAAGG
Unaligned ( gi|22 ): CTTACGACAAGAAGGATAACTCTCATGGTATGCAGA
Alignments
lowQualScore : 555555555555555555555555555 1111 222222222222 6666666666666666666666666666666666 1 1 111111 1111111 11 111 66666666666666 11 1
lowQualScore : 2 2 2 2 2 111111111111111111111111111 6666 33 1 66 5555 2 2 2 888 4444 444 3 999999 7777 0 555 44 3 444444444444 7777 66 3 1 5 1 999 3 44 0000000000000000000000000000000000 0 0 5 1 5 5 5 5 5 333333 0 8888888 1 5 6 11 8 444 00000000000000 44 0 5 8 8 0 6
lowQualScore : . . . . . ........................... .... .. . .. .... . . . ... .... ... . ...... .... . ... .. . ............ .... .. . . . . ... . .. .................................. . . . . . . . . . ...... . ....... . . . .. . ... .............. .. . . . . . .
lowQualScore : 9 9 9 9 9 222222222222222222222222222 1111 99 2 22 1111 9 9 9 888 1111 555 3 333333 1111 4 888 66 3 999999999999 7777 99 2 4 7 0 555 3 33 7777777777777777777777777777777777 7 0 0 0 0 0 0 0 0 999999 2 6666666 4 7 7 00 0 000 44444444444444 44 0 0 0 0 8 0
consensus : CTTGAGG-ACAGGAA-AC-AG-C-AC-------------CC------C-A-C-TACCC----CC--CCCC-TCC--C-GA-AT-GTT-A--NCCCC-A--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-C-----A------TTT----ATGACATATT--TCTGATCCATCCTAT-GCCATAACTCCGAAAATTAAAC-TTAAAGAATCATTTT------------T-----AAA------A------ACCTAACCCGACTAGTAT-AAACANA-GAAA-GGTTGCCAAC-TTCGTC-TGCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCACG-------CGCG--TAGCCC-GAATATTTCCGCCGCTGAACATATCCAT-GT-CACGTAAATTAAATGAA
Reference ( family-844 ) : CTTGAGG-ACAGGAA-AC-AG-C-AC-------------CC------C-A-C-TACCC----CC--CCCC-TCC--C-GA-AT-GTT-A--NCCCC-A--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-C-----A------TTT----ATGACATATT--TCTGATCCATCCTAT-GCCATAACTCCGAAAATTAAAC-TTAAANAATCATTTT------------T-----AAA------A------ACCTAACCCGACTAGTAT-AA-CANA-GAAA-GGTTGCCAAC-TTCGTC-TGCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCACG-------CGC---CAGCCC-GAATATTTCCGCCGCTGAACATACGCAT-GT-CACGTAAATTAAATAAA
gi|1 : CTTGAGG-ACAGGAA-AC-AG-C-CC-------------CC------CTA-CATACCC----CC--CCCC-TCC--C-GA-AT-GT--A--TTCCC-A--GGC-T-TCTTGTGA-TTTTTTC----AT----GTCA---A--T-C-----A------TTT----ATAACATATT--TCTGGTTCATCCTA--GCCATAACTCAGAATATTTAAC-TTAAAGAATCGTTTTTTTTTTTTTTTTT-----AAA------A------ACCTAATACGACTAGTAT-AA-TATA-G-AA-GGTTGCCAAC-TTCGTCTTGCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AAT-TA-T-TAAAATCTACACCTACCA-GTAAATCATCAACG-A---TCTCCACA--------GT---CAGCT---GATATTT-CGCCGCTGAACATATCCATCGT-CACGTA---TAAATGAA
gi|10 : GAGG-ACAGGAA-AC-AGGT-GC-------------CC------C-A-C-TACCC----CCACCCCC-TCC--CCGA-AT-GTT-AT-GCACC-A--GGC-T-TC-TGTGA-CTTTC-A----GT----GTCA---A--T-C-----ACTC---TTT----AGGACATATTTCTCTGGTTC-TCCTAT-GCC
gi|12 : TGAGGGACAGGAA-ACGAG-CCGC-------------CCTACATAC-A-C-CATCC----CC--CCCC-TCCACT-GA-AT-GTT-ATCCCCCC-A--GACGT-TCTTGTGAGAATCT-CAACGGTCTAAGTCA---ACCT-C-----C------TTT----ATAGCAT-TT--CCTGccaaacacaactcacacttcagcacacatc
gi|13 : ggtgctgCTTGAGG-ACAGGAA-AC-AG-C-AC-------------------------C-TACTC----CC--ACCA--CG--A-GA-AT-ATTAA--ATCCC-G--AGC-C-TCTTGTGA-CTTTC-T----GG----GTCA---A--C-C-----A------CTgatgca
gi|14 : agagCTTGAGG-ACAGG-----------AC-------------CC--------------CCC----CC--CCCC-TCC--G-GG-AGAGTG-A--GACCC-ATGGGC-C-TTTTTAGA-CTTTT-T-----------------------------------TTT----A----ATA-A--TCTAATCTATCCTAT-GCAATAAATCTGAAAATTctttttaattaccggacgaaagtttctgacgcgtcc
gi|15 : gtgCTTGAGG-ACAG-AA-AC-AG-C-AC-------------CC------C-TTC-TACAC----CC--CCCCACCC--C-AA-AA-GTT-A--ACCCC-GCGGGC-T-TCTTGGGA-CTTTT-C----GT----GTCA---A--T-CACTTTA------TTT----ATGACA
gi|18 : CTTGAGG-ACAGGAAGAC-AC-C-ACACCTACACCCCCCCC------C-C-C-TACCCACACCC--CCCC-CCC--C-AA----GTT-A--CCCCC-G--GGC-T-TC
gi|19 : ggtgGG-ACAGGAA-AC-AG-C-AC-------------CC--------A---TGCCT----CC--A----TCC--C-AA-AT-GTT-A--ACCCC-A--GGA-C-TATTGTGA-CTTTT-G----GT----GT-----A--T-C-----C------TTT----ATGACA
gi|2 : AAAATAAAA----AAAAAATCTTTTT------------TTTTCCAAA------A------ACCTACCCCGACTAGTACGAA-GAGA-GAAA-GGTTGCCAAC-TTCGTC-TACA-AGGCGAAA-ATTAAGCAATTCCCAGGGTATTTCGTTGA-------AATGTATT-TACAATATACACCGACTA-GTAAA--ATCAACG-A---TCTCCATG-------CACGCGTAGCCT-GAATATTTCCGCCGCTGAACATACCCAT-GT-TACGTAAATTAAA
gi|20 : cGG-ACAGGAA-AC-AG-C-AC-------------CC--------A---TGCCT----CC--A----TCC--C-AA-AT-GTT-A--ACCCC-A--GGA-C-TATTGTGA-CTTTT-G----GT----GT-----A--T-C-----C------TTT----ATGACActccattctaagtgtaaaacgaaattattttcgtcggtatataatcacttttagaactcgtccaacttcgatcaacggaagaagaaaa
gi|21 : CTTGAGG-ACAGGAA-AC-AA-C-AC-------------TT------A-ACC-CACCG----CG--CCAC-TCT--A-GA-AT-GTT-A--ACCCC----GGC-TCTCTTG
gi|3 : atgCCAACTAGTAT-AAACAGA-GAAA-GGTTGCTAAC-TTTGTC-TGCA-GGGCGAGG-G----GCAGTTCCTTGGGTATTTCGTTGAAATCATTAATGTAGT-TAAAATCTAAAACTACCA-GTAAA--TTCAATGTAAATTCTCCATGGCGATGATGCG--TAGCCC-GAATGTTTCCGCCGCTGAACATACCCAT-GT-CACGTAAATTAAAa
gi|4 : TGGTAT-AAACATAAGAAA-GGTTGCCAACATTCGTC-TACA-AGGCGATA-G----GCAATCCCCAAGGTATTTCGTTAA-------AATGTATT-TAAA-TCTACATCTACCAAGTAAA--ATCAACG-A---TCTCCACG-------CG----TAGCCCTGAATATTT-CGCCGCTGAACATATGCAT-GTCCACGTAAATAAAGTgtccattctcattgaaacgaaataatttttgtcggtatatataatcactttttttaactcatccaatctcgatcaacggaagtagaaaa
gi|5 : tgGAGG-ACAGGAA-AC-AG-C-AC-------------CC-------------ATCC----CC--CACA-CCC--C-GACAT-ATT-A--TCCCCCA--GGC-T-TCTTGTGA-CTTT--C----TT----GTCATGCC--T-C-----T------TTA----ATGACA-ATT--TCTGATCCATCCTATTGCTATAACTCCGAAAATCAAAT-ATAAAAAAAAA----------------------AAA------A------CCCTAAC---GCTAGTAT-AA-AAGA-GAAAAGGTTGCAAGC-TTCGTC-TGCA-AGGCGAGAGG----GCAAT-CCCAGGGTATTTCGTTGA-------ACTGTATTGTAAAATCTACACCTAccattctataacggtgaagacgaagtaattttcgtcggtataatagtcaactttttgaaactgtccaacttcgatcacggaagtgaaaaaaa
gi|6 : ctgtg-GAAA-GGTTGCCAAC-TTCATC-TGCA-AGGCGAGA-------CAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCACG-------CG----TAGCCT-GAATATTTCCGCCGCTGAACATATGCAT-GT-CACGTAAATTAAAttt
gi|7 : TTGAGG-ACAGGAA-AC-AG-C-AC-------------CC------C---------C----CC--CTCC-CCC--C-GA-AT-ATT-A--ACCCCCA--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-A-----A------CTTCCTTATGACATATT--TCTGATCCATCCTAT-GCCATAACCCCCCAAATTAAAC-TTAAACAATCATTTT------------T-----AAA------AAAACCCACCTAACCCGACTAGTATAAA-CATA-GACA-GGTTGTCAAC-TTCGTC-TGCA-AGGCGAGA-G----GCATTCCCTAAGGTATTTgtccattctttaggtgaaacgaaataattttcgtcggtatataatcactttttgaactcatccaacttcgatcaacggaagtagaatt
gi|8 : TTGAGG-ACAAGAA-AC-AG-C-AC-------------CC-------------ACCC----AC--CTCC--------GA-AT-GCT-A--TCCCCCA--GGC-T-TATTGCGA-TTTTT-C----GT----GTCA---A--T-A-----A------------------ATATT--AC-----------AT-GCTATAACTCCGAAAATTAAAC-TTAGAGAAT--TTTT------------T-----AAA--------------TCTAACCCGACTAGTAT-AAACAAA-GAAA-GGTTGCTAAC-TTCGTC-TGCACAGGCGAGA-G----GCAATCTCCAATGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-G
gi|9 : GG-ACAGGAA-AC-AG-C-AC-------------TT----------C-TACCC----CC--CCCC-CCT--C---------------CCCC-A--GGC---TCTTGTGA-CTTTT-C----GT----GTCC---A--TCC-----ACTTTTCTTT----ATGACATATT--TC-GATCCATCCT-T-GCCATAATTCGCAAAACTAAACACTAA--AATCATTTT------------A-----AAAGAAAAGA------AGCTAACCCGACTAGTAT-AA-
4 sequences could not be aligned to this reference sequence:
Unaligned ( gi|11 ): AGTCCATTCATATAGGTGAAACGAAATAATTTTCGTCGGTATATAATCACTTTTTGAACTCGTCCAACTTCGAATCAACGAAAGTAGTAAAATCACGACACCTACGACAAGAAGGGTAACTCTCATGGTATCCAGCAA
Unaligned ( gi|16 ): ACTTTTTGAACTCGTCCAACTTCAATCAACGGAAATAGAAAAATCACGACACCTATGACAAGAAGGATAACTCTCATGATATGCAGAAAGG
Unaligned ( gi|17 ): CGTCCCCAATTCAATCAACGGAAATTAGAAAAATCACGACACCGTAGTAGACAAGAAGGATAACTCTCATGATATGCAAGAAAGG
Unaligned ( gi|22 ): CTTACGACAAGAAGGATAACTCTCATGGTATGCAGA
Alignments
lowQualScore : 555555555555555555555555555 1111 222222222222 66666666666666666666666666666 111111 1111111 11 111 555555555555 11 1
lowQualScore : 2 2 2 2 2 111111111111111111111111111 555 33 1 66 5555 2 2 2 888 4444 444 3 999999 7777 0 555 44 3 444444444444 7777 66 3 1 5 1 999 3 44 00000000000000000000000000000 0 3 1 5 5 5 5 5 333333 0 8888888 1 5 6 11 8 444 999999999999 8 44 0 8 8 0
lowQualScore : . . . . . ........................... ... .. . .. .... . . . ... .... ... . ...... .... . ... .. . ............ .... .. . . . . ... . .. ............................. . . . . . . . . ...... . ....... . . . .. . ... ............ . .. . . . .
lowQualScore : 9 9 9 9 9 222222222222222222222222222 000 99 2 22 1111 9 9 9 888 1111 555 3 333333 1111 4 888 66 3 999999999999 7777 99 2 4 7 0 555 7 33 33333333333333333333333333333 7 0 0 0 0 0 0 0 999999 2 6666666 4 7 7 00 0 000 888888888888 0 44 0 0 0 8
consensus : CTTGAGG-ACAGGAA-AC-AG-C-AC-------------CC------C-A-C-TACCC---CC--CCCC-TCC--C-GA-AT-GTT-A--NCCCC-A--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-C-----A------TTT----ATGACATATT--TCTGATCCATCCTAT-GCCATAACTCCGAAAATTAAAC-TTAAAGAATCATTTTT------------AAA------AA------CCTAACCCGACTAGTATAAACANA-GAAA-GGTTGCCAAC-TTCGTCT-GCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCA--CG-------CGCGT-AGCCC-GAATATTTCCGCCGCTGAACATATCCAT-GT-CACGTAAATTAAATGAA
Reference ( family-844 ) : CTTGAGG-ACAGGAA-AC-AG-C-AC-------------CC------C-A-C-TACCC---CC--CCCC-TCC--C-GA-AT-GTT-A--NCCCC-A--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-C-----A------TTT----ATGACATATT--TCTGATCCATCCTAT-GCCATAACTCCGAAAATTAAAC-TTAAAGAATCATTTTT------------AAA------AA------CCTAACCCGACTAGTATAAACANA-GAAA-GGTTGCCAAC-TTCGTCT-GCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCA--CG-------CGCGT-AGCCC-GAATATTTCCGCCGCTGAACATATCCAT-GT-CACGTAAATTAAATGAA
gi|1 : CTTGAGG-ACAGGAA-AC-AG-C-CC-------------CC------CTA-CATACCC---CC--CCCC-TCC--C-GA-AT-GT--A--TTCCC-A--GGC-T-TCTTGTGA-TTTTTTC----AT----GTCA---A--T-C-----A------TTT----ATAACATATT--TCTGGTTCATCCTA--GCCATAACTCAGAATATTTAAC-TTAAAGAATCGTTTTTTTTTTTTTTTTTAAA------AA------CCTAATACGACTAGTATAA-TATA-GAA--GGTTGCCAAC-TTCGTCTTGCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AAT-TA-T-TAAAATCTACACCTACCA-GTAAATCATCAACG-A---TCTCCA--CA----------GTCAGCT---GATATTT-CGCCGCTGAACATATCCATCGT-CACGTA---TAAATGAA
gi|10 : GAGG-ACAGGAA-AC-AGGT-GC-------------CC------C-A-C-TACCC---CCACCCCC-TCC--CCGA-AT-GTT-AT-GCACC-A--GGC-T-TC-TGTGA-CTTTC-A----GT----GTCA---A--T-C-----ACTC---TTT----AGGACATATTTCTCTGGTTC-TCCTAT-GCC
gi|12 : TGAGGGACAGGAA-ACGAG-CCGC-------------CCTACATAC-A-C-CATCC---CC--CCCC-TCCACT-GA-AT-GTT-ATCCCCCC-A--GACGT-TCTTGTGAGAATCT-CAACGGTCTAAGTCA---ACCT-C-----C------TTT----ATAGCAT-TT--CCTGccaaacacaactcacacttcagcacacatc
gi|13 : ggtgctgCTTGAGG-ACAGGAA-AC-AG-C-AC-------------------------C-TACTC---CC--ACCA--CG--A-GA-AT-ATTAA--ATCCC-G--AGC-C-TCTTGTGA-CTTTC-T----GG----GTCA---A--C-C-----A------CTgatgca
gi|14 : agagCTTGAGG-ACAGG-----------AC-------------CC--------------CCC---CC--CCCC-TCC--G-GG-AGAGTG-A--GACCC-ATGGGC-C-TTTTTAGA-CTTTT-T-----------------------------------TTT----A----ATA-A--TCTAATCTATCCTAT-GCAATAAATCTGAAAATTctttttaattaccggacgaaagtttctgacgcgtcc
gi|15 : gtgCTTGAGG-ACAG-AA-AC-AG-C-AC-------------CC------C-TTC-TACAC---CC--CCCCACCC--C-AA-AA-GTT-A--ACCCC-GCGGGC-T-TCTTGGGA-CTTTT-C----GT----GTCA---A--T-CACTTTA------TTT----ATGACA
gi|18 : CTTGAGG-ACAGGAAGAC-AC-C-ACACCTACACCCCCCCC------C-C-C-TACCCACACC--CCCC-CCC--C-CA-A--GTT-A--CCCCC-G--GGC-T-TC
gi|19 : ggtgGG-ACAGGAA-AC-AG-C-AC-------------CC--------A---TGCCT---CC--A----TCC--C-AA-AT-GTT-A--ACCCC-A--GGA-C-TATTGTGA-CTTTT-G----GT----GT-----A--T-C-----C------TTT----ATGACA
gi|2 : AAAATAAAA----AAAAAATCTTTTTTTTTCC-------AAA------AA------CCTACCCCGACTAGTACGAAGAGA-GAAA-GGTTGCCAAC-TTCGTCT-ACA-AGGCGAAA-ATTAAGCAATTCCCAGGGTATTTCGTTGA-------AATGTATT-TACAATATACACCGACTA-GTAAA--ATCAACG-A---TCTCCATGCA-------CGCGT-AGCCT-GAATATTTCCGCCGCTGAACATACCCAT-GT-TACGTAAATTAAA
gi|20 : cGG-ACAGGAA-AC-AG-C-AC-------------CC--------A---TGCCT---CC--A----TCC--C-AA-AT-GTT-A--ACCCC-A--GGA-C-TATTGTGA-CTTTT-G----GT----GT-----A--T-C-----C------TTT----ATGACActccattctaagtgtaaaacgaaattattttcgtcggtatataatcacttttagaactcgtccaacttcgatcaacggaagaagaaaa
gi|21 : CTTGAGG-ACAGGAA-AC-AA-C-AC-------------TT------A-ACC-CACCG---CG--CCAC-TCT--A-GA-AT-GTT-A--ACCCC----GGC-TCTCTTG
gi|3 : atgCCAACTAGTATAAACAGA-GAAA-GGTTGCTAAC-TTTGTCT-GCA-GGGCGAGG-G----GCAGTTCCTTGGGTATTTCGTTGAAATCATTAATGTAGT-TAAAATCTAAAACTACCA-GTAAA--TTCAATGTAAATTCTCCA--TGGCGATGATGCGT-AGCCC-GAATGTTTCCGCCGCTGAACATACCCAT-GT-CACGTAAATTAAAa
gi|4 : TGGTATAAACATAAGAAA-GGTTGCCAACATTCGTCT-ACA-AGGCGATA-G----GCAATCCCCAAGGTATTTCGTTAA-------AATGTATT-TAAA-TCTACATCTACCAAGTAAA--ATCAACG-A---TCTCCA-----------CGCGT-AGCCCTGAATATTT-CGCCGCTGAACATATGCAT-GTCCACGTAAATAAAGTgtccattctcattgaaacgaaataatttttgtcggtatatataatcactttttttaactcatccaatctcgatcaacggaagtagaaaa
gi|5 : tgGAGG-ACAGGAA-AC-AG-C-AC-------------CC-------------ATCC---CC--CACA-CCC--C-GACAT-ATT-A--TCCCCCA--GGC-T-TCTTGTGA-CTTT--C----TT----GTCATGCC--T-C-----T------TTA----ATGACA-ATT--TCTGATCCATCCTATTGCTATAACTCCGAAAATCAAAT-ATAAAAAAAAA-----------------AAA------AC------CCTAAC---GCTAGTATAAA-AGA-GAAAAGGTTGCAAGC-TTCGTCT-GCA-AGGCGAGAGG----GCAAT-CCCAGGGTATTTCGTTGA-------ACTGTATTGTAAAATCTACACCTAccattctataacggtgaagacgaagtaattttcgtcggtataatagtcaactttttgaaactgtccaacttcgatcacggaagtgaaaaaaa
gi|6 : ctgtg-GAAA-GGTTGCCAAC-TTCATCT-GCA-AGGCGAGA-------CAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCA-----------CGCGT-AGCCT-GAATATTTCCGCCGCTGAACATATGCAT-GT-CACGTAAATTAAAttt
gi|7 : TTGAGG-ACAGGAA-AC-AG-C-AC-------------CC------C---------C---CC--CTCC-CCC--C-GA-AT-ATT-A--ACCCCCA--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-A-----A------CTTCCTTATGACATATT--TCTGATCCATCCTAT-GCCATAACCCCCCAAATTAAAC-TTAAACAATCATTTTT------------AAA------AAAACCCACCTAACCCGACTAGTATAAACATA-GACA-GGTTGTCAAC-TTCGTCT-GCA-AGGCGAGA-G----GCATTCCCTAAGGTATTTgtccattctttaggtgaaacgaaataattttcgtcggtatataatcactttttgaactcatccaacttcgatcaacggaagtagaatt
gi|8 : TTGAGG-ACAAGAA-AC-AG-C-AC-------------CC-------------ACCC---AC--CTCC--------GA-AT-GCT-A--TCCCCCA--GGC-T-TATTGCGA-TTTTT-C----GT----GTCA---A--T-A-----A------------------ATATT--AC-----------AT-GCTATAACTCCGAAAATTAAAC-TTAGAGAAT--TTTTT------------AAA--------------TCTAACCCGACTAGTATAAACAAA-GAAA-GGTTGCTAAC-TTCGTCT-GCACAGGCGAGA-G----GCAATCTCCAATGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-G
gi|9 : GG-ACAGGAA-AC-AG-C-AC-------------TT----------C-TACCC---CC--CCCC-CCT--C---------------CCCC-A--GGC---TCTTGTGA-CTTTT-C----GT----GTCC---A--TCC-----ACTTTTCTTT----ATGACATATT--TC-GATCCATCCT-T-GCCATAATTCGCAAAACTAAACACTAA--AATCATTTTA------------AAAGAAAAGAA------GCTAACCCGACTAGTATAAA
4 sequences could not be aligned to this reference sequence:
Unaligned ( gi|11 ): AGTCCATTCATATAGGTGAAACGAAATAATTTTCGTCGGTATATAATCACTTTTTGAACTCGTCCAACTTCGAATCAACGAAAGTAGTAAAATCACGACACCTACGACAAGAAGGGTAACTCTCATGGTATCCAGCAA
Unaligned ( gi|16 ): ACTTTTTGAACTCGTCCAACTTCAATCAACGGAAATAGAAAAATCACGACACCTATGACAAGAAGGATAACTCTCATGATATGCAGAAAGG
Unaligned ( gi|17 ): CGTCCCCAATTCAATCAACGGAAATTAGAAAAATCACGACACCGTAGTAGACAAGAAGGATAACTCTCATGATATGCAAGAAAGG
Unaligned ( gi|22 ): CTTACGACAAGAAGGATAACTCTCATGGTATGCAGA
Alignments
lowQualScore : 555555555555555555555555555 1111 222222222222 66666666666666666666666666666 111111 1111111 11 111 555555555555 11 1
lowQualScore : 2 2 2 2 2 111111111111111111111111111 555 33 1 66 5555 2 2 2 888 4444 444 3 999999 7777 0 555 44 3 444444444444 7777 66 3 1 5 1 999 3 44 00000000000000000000000000000 0 3 1 5 5 5 5 5 333333 0 8888888 1 5 6 11 8 444 999999999999 8 44 0 8 8 0
lowQualScore : . . . . . ........................... ... .. . .. .... . . . ... .... ... . ...... .... . ... .. . ............ .... .. . . . . ... . .. ............................. . . . . . . . . ...... . ....... . . . .. . ... ............ . .. . . . .
lowQualScore : 9 9 9 9 9 222222222222222222222222222 000 99 2 22 1111 9 9 9 888 1111 555 3 333333 1111 4 888 66 3 999999999999 7777 99 2 4 7 0 555 7 33 33333333333333333333333333333 7 0 0 0 0 0 0 0 999999 2 6666666 4 7 7 00 0 000 888888888888 0 44 0 0 0 8
consensus : CTTGAGG-ACAGGAA-AC-AG-C-AC-------------CC------C-A-C-TACCC---CC--CCCC-TCC--C-GA-AT-GTT-A--NCCCC-A--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-C-----A------TTT----ATGACATATT--TCTGATCCATCCTAT-GCCATAACTCCGAAAATTAAAC-TTAAAGAATCATTTTT------------AAA------AA------CCTAACCCGACTAGTATAAACANA-GAAA-GGTTGCCAAC-TTCGTCT-GCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCA--CG-------CGCGT-AGCCC-GAATATTTCCGCCGCTGAACATATCCAT-GT-CACGTAAATTAAATGAA
Reference ( family-844 ) : CTTGAGG-ACAGGAA-AC-AG-C-AC-------------CC------C-A-C-TACCC---CC--CCCC-TCC--C-GA-AT-GTT-A--NCCCC-A--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-C-----A------TTT----ATGACATATT--TCTGATCCATCCTAT-GCCATAACTCCGAAAATTAAAC-TTAAAGAATCATTTTT------------AAA------AA------CCTAACCCGACTAGTATAAACANA-GAAA-GGTTGCCAAC-TTCGTCT-GCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCA--CG-------CGCGT-AGCCC-GAATATTTCCGCCGCTGAACATATCCAT-GT-CACGTAAATTAAATGAA
gi|1 : CTTGAGG-ACAGGAA-AC-AG-C-CC-------------CC------CTA-CATACCC---CC--CCCC-TCC--C-GA-AT-GT--A--TTCCC-A--GGC-T-TCTTGTGA-TTTTTTC----AT----GTCA---A--T-C-----A------TTT----ATAACATATT--TCTGGTTCATCCTA--GCCATAACTCAGAATATTTAAC-TTAAAGAATCGTTTTTTTTTTTTTTTTTAAA------AA------CCTAATACGACTAGTATAA-TATA-GAA--GGTTGCCAAC-TTCGTCTTGCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AAT-TA-T-TAAAATCTACACCTACCA-GTAAATCATCAACG-A---TCTCCA--CA----------GTCAGCT---GATATTT-CGCCGCTGAACATATCCATCGT-CACGTA---TAAATGAA
gi|10 : GAGG-ACAGGAA-AC-AGGT-GC-------------CC------C-A-C-TACCC---CCACCCCC-TCC--CCGA-AT-GTT-AT-GCACC-A--GGC-T-TC-TGTGA-CTTTC-A----GT----GTCA---A--T-C-----ACTC---TTT----AGGACATATTTCTCTGGTTC-TCCTAT-GCC
gi|12 : TGAGGGACAGGAA-ACGAG-CCGC-------------CCTACATAC-A-C-CATCC---CC--CCCC-TCCACT-GA-AT-GTT-ATCCCCCC-A--GACGT-TCTTGTGAGAATCT-CAACGGTCTAAGTCA---ACCT-C-----C------TTT----ATAGCAT-TT--CCTGccaaacacaactcacacttcagcacacatc
gi|13 : ggtgctgCTTGAGG-ACAGGAA-AC-AG-C-AC-------------------------C-TACTC---CC--ACCA--CG--A-GA-AT-ATTAA--ATCCC-G--AGC-C-TCTTGTGA-CTTTC-T----GG----GTCA---A--C-C-----A------CTgatgca
gi|14 : agagCTTGAGG-ACAGG-----------AC-------------CC--------------CCC---CC--CCCC-TCC--G-GG-AGAGTG-A--GACCC-ATGGGC-C-TTTTTAGA-CTTTT-T-----------------------------------TTT----A----ATA-A--TCTAATCTATCCTAT-GCAATAAATCTGAAAATTctttttaattaccggacgaaagtttctgacgcgtcc
gi|15 : gtgCTTGAGG-ACAG-AA-AC-AG-C-AC-------------CC------C-TTC-TACAC---CC--CCCCACCC--C-AA-AA-GTT-A--ACCCC-GCGGGC-T-TCTTGGGA-CTTTT-C----GT----GTCA---A--T-CACTTTA------TTT----ATGACA
gi|18 : CTTGAGG-ACAGGAAGAC-AC-C-ACACCTACACCCCCCCC------C-C-C-TACCCACACC--CCCC-CCC--C-CA-A--GTT-A--CCCCC-G--GGC-T-TC
gi|19 : ggtgGG-ACAGGAA-AC-AG-C-AC-------------CC--------A---TGCCT---CC--A----TCC--C-AA-AT-GTT-A--ACCCC-A--GGA-C-TATTGTGA-CTTTT-G----GT----GT-----A--T-C-----C------TTT----ATGACA
gi|2 : AAAATAAAA----AAAAAATCTTTTTTTTTCC-------AAA------AA------CCTACCCCGACTAGTACGAAGAGA-GAAA-GGTTGCCAAC-TTCGTCT-ACA-AGGCGAAA-ATTAAGCAATTCCCAGGGTATTTCGTTGA-------AATGTATT-TACAATATACACCGACTA-GTAAA--ATCAACG-A---TCTCCATGCA-------CGCGT-AGCCT-GAATATTTCCGCCGCTGAACATACCCAT-GT-TACGTAAATTAAA
gi|20 : cGG-ACAGGAA-AC-AG-C-AC-------------CC--------A---TGCCT---CC--A----TCC--C-AA-AT-GTT-A--ACCCC-A--GGA-C-TATTGTGA-CTTTT-G----GT----GT-----A--T-C-----C------TTT----ATGACActccattctaagtgtaaaacgaaattattttcgtcggtatataatcacttttagaactcgtccaacttcgatcaacggaagaagaaaa
gi|21 : CTTGAGG-ACAGGAA-AC-AA-C-AC-------------TT------A-ACC-CACCG---CG--CCAC-TCT--A-GA-AT-GTT-A--ACCCC----GGC-TCTCTTG
gi|3 : atgCCAACTAGTATAAACAGA-GAAA-GGTTGCTAAC-TTTGTCT-GCA-GGGCGAGG-G----GCAGTTCCTTGGGTATTTCGTTGAAATCATTAATGTAGT-TAAAATCTAAAACTACCA-GTAAA--TTCAATGTAAATTCTCCA--TGGCGATGATGCGT-AGCCC-GAATGTTTCCGCCGCTGAACATACCCAT-GT-CACGTAAATTAAAa
gi|4 : TGGTATAAACATAAGAAA-GGTTGCCAACATTCGTCT-ACA-AGGCGATA-G----GCAATCCCCAAGGTATTTCGTTAA-------AATGTATT-TAAA-TCTACATCTACCAAGTAAA--ATCAACG-A---TCTCCA-----------CGCGT-AGCCCTGAATATTT-CGCCGCTGAACATATGCAT-GTCCACGTAAATAAAGTgtccattctcattgaaacgaaataatttttgtcggtatatataatcactttttttaactcatccaatctcgatcaacggaagtagaaaa
gi|5 : tgGAGG-ACAGGAA-AC-AG-C-AC-------------CC-------------ATCC---CC--CACA-CCC--C-GACAT-ATT-A--TCCCCCA--GGC-T-TCTTGTGA-CTTT--C----TT----GTCATGCC--T-C-----T------TTA----ATGACA-ATT--TCTGATCCATCCTATTGCTATAACTCCGAAAATCAAAT-ATAAAAAAAAA-----------------AAA------AC------CCTAAC---GCTAGTATAAA-AGA-GAAAAGGTTGCAAGC-TTCGTCT-GCA-AGGCGAGAGG----GCAAT-CCCAGGGTATTTCGTTGA-------ACTGTATTGTAAAATCTACACCTAccattctataacggtgaagacgaagtaattttcgtcggtataatagtcaactttttgaaactgtccaacttcgatcacggaagtgaaaaaaa
gi|6 : ctgtg-GAAA-GGTTGCCAAC-TTCATCT-GCA-AGGCGAGA-------CAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCA-----------CGCGT-AGCCT-GAATATTTCCGCCGCTGAACATATGCAT-GT-CACGTAAATTAAAttt
gi|7 : TTGAGG-ACAGGAA-AC-AG-C-AC-------------CC------C---------C---CC--CTCC-CCC--C-GA-AT-ATT-A--ACCCCCA--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-A-----A------CTTCCTTATGACATATT--TCTGATCCATCCTAT-GCCATAACCCCCCAAATTAAAC-TTAAACAATCATTTTT------------AAA------AAAACCCACCTAACCCGACTAGTATAAACATA-GACA-GGTTGTCAAC-TTCGTCT-GCA-AGGCGAGA-G----GCATTCCCTAAGGTATTTgtccattctttaggtgaaacgaaataattttcgtcggtatataatcactttttgaactcatccaacttcgatcaacggaagtagaatt
gi|8 : TTGAGG-ACAAGAA-AC-AG-C-AC-------------CC-------------ACCC---AC--CTCC--------GA-AT-GCT-A--TCCCCCA--GGC-T-TATTGCGA-TTTTT-C----GT----GTCA---A--T-A-----A------------------ATATT--AC-----------AT-GCTATAACTCCGAAAATTAAAC-TTAGAGAAT--TTTTT------------AAA--------------TCTAACCCGACTAGTATAAACAAA-GAAA-GGTTGCTAAC-TTCGTCT-GCACAGGCGAGA-G----GCAATCTCCAATGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-G
gi|9 : GG-ACAGGAA-AC-AG-C-AC-------------TT----------C-TACCC---CC--CCCC-CCT--C---------------CCCC-A--GGC---TCTTGTGA-CTTTT-C----GT----GTCC---A--TCC-----ACTTTTCTTT----ATGACATATT--TC-GATCCATCCT-T-GCCATAATTCGCAAAACTAAACACTAA--AATCATTTTA------------AAAGAAAAGAA------GCTAACCCGACTAGTATAAA
blockSeqs : G G G G C ACCTACACCCCCCCCCCC ACA AC C AC ACT C A A TCC ATG GT G CAACG CTAA TGC CC C ACTTTTC CCTT TC T A T T CAC A CT AAAAAAACCCA G G A A A . C ATTAA AATCATT T G A . T AAT TGGCGATGAT . CT C . C
blockSeqs : . . . . . CCTACATACAC . . C T CC . . . TG GCG TC . A . . . . ACTTTA . . T A . C TA A AA AAAGAAAAGAA C G . . . . . GG . G . . . . . TGCAC . T C . .
blockSeqs : . . . . . CCCTTC . . C T A . . . A CA T . T . . . . ACTC . . T A . C CT C CA TTTCCAAAAA C T . . . . . G . T . . . . . C . C C . .
blockSeqs : . . . . . TTAACC . . C T G . . . G CA C . T . . . . C . . T A . C CT G CA AAAAC C G . . . . . G . T . . . . . C . T . . .
blockSeqs : . . . . . CCCAC . . C C C . . . A CA C . C . . . . A . . T . . G . . . AAA C T . . . . . G . T . .
blockSeqs : . . . . . CCA . . C T C . . . C A T . G . . . . C . . . . . . A . . . . . G . T .
blockSeqs : . . . . . CCA . . C T C . . . A A T . G . . . . C . . . . . . . . .
blockSeqs : . . . . . CCC . . A T C . . . A G C . C . . . . T .
blockSeqs : . . . . . TTC . . T C A . . . A G C . C . . . . A .
blockSeqs : . . . . . CC . . T C C . . . T A T . C . . . . A .
blockSeqs : . . . . . CC . . C C C . . . A A T . C . . . . .
blockSeqs : . . . . . CC . . . . C . . . T A T
blockSeqs : . . . . . C . . . . . . . . . . .
blockSeqCons : CCC************************ C***** AAAAA************************ ** TGC********* T*
originalCons : CTTGAGG-ACAGGAA-AC-AG-C-AC-------------CC------C-A-C-TACCC---CC--CCCC-TCC--C-GA-AT-GTT-A--NCCCC-A--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-C-----A------TTT----ATGACATATT--TCTGATCCATCCTAT-GCCATAACTCCGAAAATTAAAC-TTAAAGAATCATTTTT------------AAA------AA------CCTAACCCGACTAGTATAAACANA-GAAA-GGTTGCCAAC-TTCGTCT-GCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCA--CG-------CGCGT-AGCCC-GAATATTTCCGCCGCTGAACATATCCAT-GT-CACGTAAATTAAATGAA
finalCons : CTTGAGG-ACAGGAA-AC-AG-C-ACCCC------------------------TACCC---CC--CCCC-TCC--C-GA-AT-GTT-A--NCCCC-A--GGC-T-TCTTGTGA-CTTTTC-----GT----GTCA---A--T-C-----A------TTT----ATGACATATT--TCTGATCCATCCTAT-GCCATAACTCCGAAAATTAAAC-TTAAAGAATCATTTTTAAAAA------------------------CCTAACCCGACTAGTATAAACANA-GAAA-GGTTGCCAAC-TTCGTCT-GCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCATGC---------GCGT-AGCCT-GAATATTTCCGCCGCTGAACATATCCAT-GT-CACGTAAATTAAATGAA
4 sequences could not be aligned to this reference sequence:
Unaligned ( gi|11 ): AGTCCATTCATATAGGTGAAACGAAATAATTTTCGTCGGTATATAATCACTTTTTGAACTCGTCCAACTTCGAATCAACGAAAGTAGTAAAATCACGACACCTACGACAAGAAGGGTAACTCTCATGGTATCCAGCAA
Unaligned ( gi|16 ): ACTTTTTGAACTCGTCCAACTTCAATCAACGGAAATAGAAAAATCACGACACCTATGACAAGAAGGATAACTCTCATGATATGCAGAAAGG
Unaligned ( gi|17 ): CGTCCCCAATTCAATCAACGGAAATTAGAAAAATCACGACACCGTAGTAGACAAGAAGGATAACTCTCATGATATGCAAGAAAGG
Unaligned ( gi|22 ): CTTACGACAAGAAGGATAACTCTCATGGTATGCAGA
Alignments
lowQualScore : 111111111 22222222222222222 1111 222222222222 66666666666666666666666666666 111111 1111111 11 111 5555555555 1
lowQualScore : 2 2 2 555 555 88888 777777777 33 1 66 5555 22222222222222222 2 2 888 4444 444 3 999999 7777 0 555 44 3 444444444444 7777 66 3 1 5 1 999 3 44 00000000000000000000000000000 0 3 1 5 5 5 5 5 333333 0 8888888 1 5 6 11 8 444 7777777777 8 8 0 0 8 8 0
lowQualScore : . . . ... ... ..... ......... .. . .. .... ................. . . ... .... ... . ...... .... . ... .. . ............ .... .. . . . . ... . .. ............................. . . . . . . . . ...... . ....... . . . .. . ... .......... . . . . . . .
lowQualScore : 9 9 9 000 000 22222 555555555 99 2 22 1111 99999999999999999 9 9 888 1111 555 3 333333 1111 4 888 66 3 999999999999 7777 99 2 4 7 0 555 7 33 33333333333333333333333333333 7 0 0 0 0 0 0 0 999999 2 6666666 4 7 7 00 0 000 0000000000 0 0 8 0 0 0 8
consensus : CTTGAGG-ACAGGAA-AC-AG---CACC---CCT---AC---------CCCC--CCCC-TCC--C-GA-----------------AT-GTT-A--NCCCC-A--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-C-----A------TTT----ATGACATATT--TCTGATCCATCCTAT-GCCATAACTCCGAAAATTAAAC-TTAAAGAATCATTTTT------------AAA------AA------CCTAACCCGACTAGTATAAACANA-GAAA-GGTTGCCAAC-TTCGTCT-GCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCACG-------CGCGT-AG-CCTGAATATTTCCGCCGCTGAACATATCCAT-GT-CACGTAAATTAAATGAA
Reference ( family-844 ) : CTTGAGG-ACAGGAA-AC-AG---CACC---CCT---AC---------CCCC--CCCC-TCC--C-GA-----------------AT-GTT-A--NCCCC-A--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-C-----A------TTT----ATGACATATT--TCTGATCCATCCTAT-GCCATAACTCCGAAAATTAAAC-TTAAAGAATCATTTTT------------AAA------AA------CCTAACCCGACTAGTATAAACANA-GAAA-GGTTGCCAAC-TTCGTCT-GCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCATG-------CGCGT-AG-CCTGAATATTTCCGCCGCTGAACATATCCAT-GT-CACGTAAATTAAATGAA
gi|1 : CTTGAGG-ACAGGAA-AC-AG---CCCC---CCT---ACATAC-----CCCC--CCCC-TCC--C-GA-----------------AT-GT--A--TTCCC-A--GGC-T-TCTTGTGA-TTTTTTC----AT----GTCA---A--T-C-----A------TTT----ATAACATATT--TCTGGTTCATCCTA--GCCATAACTCAGAATATTTAAC-TTAAAGAATCGTTTTTTTTTTTTTTTTTAAA------AA------CCTAATACGACTAGTATAA-TATA-GAA--GGTTGCCAAC-TTCGTCTTGCA-AGGCGAGA-G----GCAATCCCCAGGGTATTTCGTTGA-------AAT-TA-T-TAAAATCTACACCTACCA-GTAAATCATCAACG-A---TCTCCACA----------GTCAG--CTG-ATATTT-CGCCGCTGAACATATCCATCGT-CACGTA---TAAATGAA
gi|10 : GAGG-ACAGGAA-AC-AGGTGCCCC---ACT---AC---------CCCCACCCCC-TCC--CCGA-----------------AT-GTT-AT-GCACC-A--GGC-T-TC-TGTGA-CTTTC-A----GT----GTCA---A--T-C-----ACTC---TTT----AGGACATATTTCTCTGGTTC-TCCTAT-GCC
gi|12 : TGAGGGACAGGAA-ACGAG---CCGC---CCT---ACATACACCATCCCC--CCCC-TCCACT-GA-----------------AT-GTT-ATCCCCCC-A--GACGT-TCTTGTGAGAATCT-CAACGGTCTAAGTCA---ACCT-C-----C------TTT----ATAGCAT-TT--CCTGccaaacacaactcacacttcagcacacatc
gi|13 : ggtgctgCTTGAGG-ACAGGAA-AC-AG---CA-----CCT---AC---------TCCC--ACCA--CG--A-GA-----------------AT-ATTAA--ATCCC-G--AGC-C-TCTTGTGA-CTTTC-T----GG----GTCA---A--C-C-----A------CTgatgca
gi|14 : agagCTTGAGG-ACAGGA-------------C---CC-----C---------CCCC--CCCC-TCC--G-GG-----------------AGAGTG-A--GACCC-ATGGGC-C-TTTTTAGA-CTTTT-T-----------------------------------TTT----A----ATA-A--TCTAATCTATCCTAT-GCAATAAATCTGAAAATTctttttaattaccggacgaaagtttctgacgcgtcc
gi|15 : gtgCTTGAGG-ACAG-AA-AC-AG---CACC---CCTTCTAC---------ACCC--CCCCACCC--C-AA-----------------AA-GTT-A--ACCCC-GCGGGC-T-TCTTGGGA-CTTTT-C----GT----GTCA---A--T-CACTTTA------TTT----ATGACA
gi|18 : CTTGAGG-ACAGGAAGAC-AC---CACA---CCT---AC---------ACCC--CCCC-CCC--C-TACCCACACCCCCCCCCCCAA-GTT-A--CCCCC-G--GGC-T-TC
gi|19 : ggtgGG-ACAGGAA-AC-AG---CACC---CAT---GC---------CTCC--A----TCC--C-AA-----------------AT-GTT-A--ACCCC-A--GGA-C-TATTGTGA-CTTTT-G----GT----GT-----A--T-C-----C------TTT----ATGACA
gi|2 : AAAATAAAA----AAAAAATCTTTTTTTTTCC-------AAA------AA------CCTACCCCGACTAGTACGAAGAGA-GAAA-GGTTGCCAAC-TTCGTCT-ACA-AGGCGAAA-ATTAAGCAATTCCCAGGGTATTTCGTTGA-------AATGTATT-TACAATATACACCGACTA-GTAAA--ATCAACG-A---TCTCCATGCA-----CGCGT-AG-CCTGAATATTTCCGCCGCTGAACATACCCAT-GT-TACGTAAATTAAA
gi|20 : cGG-ACAGGAA-AC-AG---CACC---CAT---GC---------CTCC--A----TCC--C-AA-----------------AT-GTT-A--ACCCC-A--GGA-C-TATTGTGA-CTTTT-G----GT----GT-----A--T-C-----C------TTT----ATGACActccattctaagtgtaaaacgaaattattttcgtcggtatataatcacttttagaactcgtccaacttcgatcaacggaagaagaaaa
gi|21 : CTTGAGG-ACAGGAA-AC-AA---CACTTAACCC---AC---------CGCG--CCAC-TCT--A-GA-----------------AT-GTT-A--ACCCC----GGC-TCTCTTG
gi|3 : atgCCAACTAGTATAAACAGA-GAAA-GGTTGCTAAC-TTTGTCT-GCA-GGGCGAGG-G----GCAGTTCCTTGGGTATTTCGTTGAAATCATTAATGTAGT-TAAAATCTAAAACTACCA-GTAAA--TTCAATGTAAATTCTCCATGGCGATGATGCGT-AG-CCCGAATGTTTCCGCCGCTGAACATACCCAT-GT-CACGTAAATTAAAa
gi|4 : TGGTATAAACATAAGAAA-GGTTGCCAACATTCGTCT-ACA-AGGCGATA-G----GCAATCCCCAAGGTATTTCGTTAA-------AATGTATT-TAAA-TCTACATCTACCAAGTAAA--ATCAACG-A---TCTCCA---------CGCGT-AGCCCTGAATATTT-CGCCGCTGAACATATGCAT-GTCCACGTAAATAAAGTgtccattctcattgaaacgaaataatttttgtcggtatatataatcactttttttaactcatccaatctcgatcaacggaagtagaaaa
gi|5 : tgGAGG-ACAGGAA-AC-AG---CACC---C-----AT---------CCCC--CACA-CCC--C-GAC----------------AT-ATT-A--TCCCCCA--GGC-T-TCTTGTGA-CTTT--C----TT----GTCATGCC--T-C-----T------TTA----ATGACA-ATT--TCTGATCCATCCTATTGCTATAACTCCGAAAATCAAAT-ATAAAAAAAAA-----------------AAA------AC------CCTAAC---GCTAGTATAAA-AGA-GAAAAGGTTGCAAGC-TTCGTCT-GCA-AGGCGAGAGG----GCAAT-CCCAGGGTATTTCGTTGA-------ACTGTATTGTAAAATCTACACCTAccattctataacggtgaagacgaagtaattttcgtcggtataatagtcaactttttgaaactgtccaacttcgatcacggaagtgaaaaaaa
gi|6 : ctgtg-GAAA-GGTTGCCAAC-TTCATCT-GCA-AGGCGAGA-------CAATCCCCAGGGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-GTAAA--ATCAACG-A---TCTCCA---------CGCGT-AG-CCTGAATATTTCCGCCGCTGAACATATGCAT-GT-CACGTAAATTAAAttt
gi|7 : TTGAGG-ACAGGAA-AC-AG---CACC---CC----------------CCC--CTCC-CCC--C-GA-----------------AT-ATT-A--ACCCCCA--GGC-T-TCTTGTGA-CTTTT-C----GT----GTCA---A--T-A-----A------CTTCCTTATGACATATT--TCTGATCCATCCTAT-GCCATAACCCCCCAAATTAAAC-TTAAACAATCATTTTT------------AAA------AAAACCCACCTAACCCGACTAGTATAAACATA-GACA-GGTTGTCAAC-TTCGTCT-GCA-AGGCGAGA-G----GCATTCCCTAAGGTATTTgtccattctttaggtgaaacgaaataattttcgtcggtatataatcactttttgaactcatccaacttcgatcaacggaagtagaatt
gi|8 : TTGAGG-ACAAGAA-AC-AG---CACC---C-----AC---------CCAC--CTCC--------GA-----------------AT-GCT-A--TCCCCCA--GGC-T-TATTGCGA-TTTTT-C----GT----GTCA---A--T-A-----A------------------ATATT--AC-----------AT-GCTATAACTCCGAAAATTAAAC-TTAGAGAAT--TTTTT------------AAA--------------TCTAACCCGACTAGTATAAACAAA-GAAA-GGTTGCTAAC-TTCGTCT-GCACAGGCGAGA-G----GCAATCTCCAATGTATTTCGTTGA-------AATGTATT-TAAAATCTACACCTACCA-G
gi|9 : GG-ACAGGAA-AC-AG---CACT---TCT---AC---------CCCC--CCCC-CCT--C-------------------------------CCCC-A--GGC---TCTTGTGA-CTTTT-C----GT----GTCC---A--TCC-----ACTTTTCTTT----ATGACATATT--TC-GATCCATCCT-T-GCCATAATTCGCAAAACTAAACACTAA--AATCATTTTA------------AAAGAAAAGAA------GCTAACCCGACTAGTATAAA
4 sequences could not be aligned to this reference sequence:
Unaligned ( gi|11 ): AGTCCATTCATATAGGTGAAACGAAATAATTTTCGTCGGTATATAATCACTTTTTGAACTCGTCCAACTTCGAATCAACGAAAGTAGTAAAATCACGACACCTACGACAAGAAGGGTAACTCTCATGGTATCCAGCAA
Unaligned ( gi|16 ): ACTTTTTGAACTCGTCCAACTTCAATCAACGGAAATAGAAAAATCACGACACCTATGACAAGAAGGATAACTCTCATGATATGCAGAAAGG
Unaligned ( gi|17 ): CGTCCCCAATTCAATCAACGGAAATTAGAAAAATCACGACACCGTAGTAGACAAGAAGGATAACTCTCATGATATGCAAGAAAGG
Unaligned ( gi|22 ): CTTACGACAAGAAGGATAACTCTCATGGTATGCAGA